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Crystal Structure of 3-methyladenine DNA Glycosylase I (TAG) bound to DNA/3mA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 294 2M ammonium sulfate, 2% PEG 400, 100 mM HEPES pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.91 57.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.963 α = 90 b = 101.963 β = 90 c = 55.461 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2005-12-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 0.9793 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.85 50 99.6 0.053 27.2 6.4 28261 28.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.92 97.9 0.433 3.4 5.3 5415
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.85 50 28215 26778 1420 99.93 0.17666 0.17555 0.1848 0.19784 0.2076 RANDOM 34.364
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.01 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.463 r_dihedral_angle_4_deg 17.152 r_dihedral_angle_3_deg 14.802 r_dihedral_angle_1_deg 5.194 r_scangle_it 3.735 r_scbond_it 2.662 r_angle_refined_deg 1.868 r_mcangle_it 1.781 r_mcbond_it 1.027 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.463 r_dihedral_angle_4_deg 17.152 r_dihedral_angle_3_deg 14.802 r_dihedral_angle_1_deg 5.194 r_scangle_it 3.735 r_scbond_it 2.662 r_angle_refined_deg 1.868 r_mcangle_it 1.781 r_mcbond_it 1.027 r_nbtor_refined 0.309 r_metal_ion_refined 0.266 r_nbd_refined 0.2 r_xyhbond_nbd_refined 0.134 r_symmetry_vdw_refined 0.129 r_chiral_restr 0.113 r_symmetry_hbond_refined 0.11 r_bond_refined_d 0.018 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1445 Nucleic Acid Atoms 476 Solvent Atoms 159 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement SERGUI data collection HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing